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- PDB-3eyx: Crystal structure of Carbonic Anhydrase Nce103 from Saccharomyces... -
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Open data
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Basic information
Entry | Database: PDB / ID: 3eyx | ||||||
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Title | Crystal structure of Carbonic Anhydrase Nce103 from Saccharomyces cerevisiae | ||||||
![]() | Carbonic anhydrase![]() | ||||||
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Function / homology | ![]() cellular response to carbon dioxide / carbon utilization / ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Teng, Y.B. / Jiang, Y.L. / Chen, Y. / Zhou, C.Z. | ||||||
![]() | ![]() Title: Structural insights into the substrate tunnel of Saccharomyces cerevisiae carbonic anhydrase Nce103. Authors: Teng, Y.B. / Jiang, Y.L. / He, Y.X. / He, W.W. / Lian, F.M. / Chen, Y. / Zhou, C.Z. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 89.3 KB | Display | ![]() |
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PDB format | ![]() | 72 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 321.7 KB | Display | ![]() |
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Full document | ![]() | 324.3 KB | Display | |
Data in XML | ![]() | 18.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1ddzS S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | ![]() Mass: 24562.865 Da / Num. of mol.: 2 / Fragment: residues 14-221 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() Strain: S288C / Gene: NCE103 / Plasmid: P29 / Production host: ![]() ![]() ![]() ![]() #2: Chemical | #3: Chemical | ![]() #4: Chemical | ChemComp-EDO / ![]() #5: Water | ChemComp-HOH / | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.15 Å3/Da / Density % sol: 42.86 % |
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Crystal grow![]() | Temperature: 289 K / Method: vapor diffusion, hanging drop / pH: 5.6 Details: 20% PEG 4000, 0.2M sodium acetate, 0.1M sodium citrate, 20% ethylene glycol , pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 289K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() |
Detector | Type: MAR scanner 345 mm plate / Detector: IMAGE PLATE / Date: Jan 1, 2007 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2.03→30 Å / Num. all: 71916 / Num. obs: 25657 / % possible obs: 93.1 % / Redundancy: 2.8 % / Rmerge(I) obs: 0.066 / Rsym value: 0.081 / Net I/σ(I): 13.5 |
Reflection shell | Resolution: 2.03→2.14 Å / Redundancy: 2.8 % / Rmerge(I) obs: 0.31 / Mean I/σ(I) obs: 3.2 / Rsym value: 0.383 / % possible all: 81 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: PDB ENTRY 1DDZ Resolution: 2.04→16.11 Å / Cor.coef. Fo:Fc: 0.938 / Cor.coef. Fo:Fc free: 0.908 / SU B: 4.185 / SU ML: 0.118 / Cross valid method: THROUGHOUT / ESU R: 0.228 / ESU R Free: 0.189 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 21.718 Å2
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Refinement step | Cycle: LAST / Resolution: 2.04→16.11 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.043→2.096 Å / Total num. of bins used: 20
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